Add detailed dataset card

README.md

@@ -1,86 +1,269 @@
 ---
-dataset_info:
-- config_name: closeup
-  features:
-  - name: polygon_id
-    dtype: int64
-  - name: split
-    dtype: string
-  - name: species_label
-    dtype: string
-  - name: canopyrs_object_id
-    dtype: int64
-  - name: final_plant_name
-    dtype: string
-  - name: gbif_accepted_scientific_name
-    dtype: string
-  - name: area
-    dtype: float64
-  - name: habit
-    dtype: string
-  - name: closeup
-    dtype: image
-  splits:
-  - name: train
-    num_bytes: 700685099
-    num_examples: 1336
-  - name: val
-    num_bytes: 140719427
-    num_examples: 267
-  - name: test
-    num_bytes: 154392724
-    num_examples: 294
-  download_size: 995712416
-  dataset_size: 995797250
-- config_name: temporal
-  features:
-  - name: polygon_id
-    dtype: int64
-  - name: date
-    dtype: string
-  - name: split
-    dtype: string
-  - name: species_label
-    dtype: string
-  - name: canopyrs_object_id
-    dtype: int64
-  - name: final_plant_name
-    dtype: string
-  - name: gbif_accepted_scientific_name
-    dtype: string
-  - name: area
-    dtype: float64
-  - name: habit
-    dtype: string
-  - name: crownview
-    dtype: image
-  splits:
-  - name: train
-    num_bytes: 6837373385
-    num_examples: 21376
-  - name: val
-    num_bytes: 1320390188
-    num_examples: 4272
-  - name: test
-    num_bytes: 1394965700
-    num_examples: 4704
-  download_size: 9550323640
-  dataset_size: 9552729273
+license: cc-by-4.0
+task_categories:
+  - image-classification
+  - image-to-image
+language:
+  - en
+tags:
+  - biodiversity
+  - remote-sensing
+  - tropical-forest
+  - tree-species
+  - aerial-imagery
+  - drone
+  - multi-temporal
+  - crown-view
+  - closeup
+  - BCI
+  - Panama
+pretty_name: BCI Temporal Crown Dataset
+size_categories:
+  - 10K<n<100K
 configs:
-- config_name: closeup
-  data_files:
-  - split: train
-    path: closeup/train-*
-  - split: val
-    path: closeup/val-*
-  - split: test
-    path: closeup/test-*
-- config_name: temporal
-  data_files:
-  - split: train
-    path: temporal/train-*
-  - split: val
-    path: temporal/val-*
-  - split: test
-    path: temporal/test-*
+  - config_name: temporal
+    data_files:
+      - split: train
+        path: temporal/train/*.parquet
+      - split: val
+        path: temporal/val/*.parquet
+      - split: test
+        path: temporal/test/*.parquet
+  - config_name: closeup
+    data_files:
+      - split: train
+        path: closeup/train/*.parquet
+      - split: val
+        path: closeup/val/*.parquet
+      - split: test
+        path: closeup/test/*.parquet
 ---
+
+# BCI Temporal Crown Dataset
+
+A multi-temporal, multi-modal dataset of **tropical tree crowns** from Barro Colorado Island (BCI), Panama. Each tree is observed across **16 acquisition dates** spanning June 2024 – September 2025, paired with a ground-level close-up photograph.
+
+---
+
+## Dataset Summary
+
+| | |
+|---|---|
+| **Site** | Barro Colorado Island (BCI), Smithsonian Tropical Research Institute, Panama |
+| **Tree crowns** | 1,897 labeled polygons across 84 species |
+| **Raster dates** | 16 (monthly, June 2024 – September 2025) |
+| **Total temporal rows** | ~30,000 (1,897 crowns × 16 dates) |
+| **Crown area** | 7 – 1,212 m² (median ~160 m²) |
+| **Image resolution** | 512 × 512 px, RGBA (alpha = crown mask) |
+| **Growth form** | All freestanding trees |
+
+---
+
+## Configurations
+
+This dataset has two configurations that can be **joined on `polygon_id`** at load time.
+
+### `temporal` — Crown-view tiles (one row per crown × date)
+
+Each row is a masked aerial crown tile extracted from a monthly RGB orthomosaic raster.
+
+| Column | Type | Description |
+|---|---|---|
+| `polygon_id` | int | Unique crown identifier (join key) |
+| `date` | string | Acquisition date `YYYYMMDD` |
+| `split` | string | `train` / `val` / `test` |
+| `species_label` | string | Species name used as the classification label |
+| `gbif_accepted_scientific_name` | string | GBIF-accepted full scientific name |
+| `final_plant_name` | string | Field-verified plant name |
+| `canopyrs_object_id` | int | Original CanopyRS object ID |
+| `habit` | string | Growth form (all `Freestanding`) |
+| `area` | float | Crown polygon area in m² |
+| `crownview` | Image | 512×512 RGBA masked aerial tile |
+
+**Size:** ~30,350 rows (train ~21,380 · val ~4,272 · test ~4,704 — 16 dates each)
+
+### `closeup` — Ground-level close-up photos (one row per crown)
+
+Each row is a zoom photograph taken from a drone at lower altitude, centered on the crown.
+
+| Column | Type | Description |
+|---|---|---|
+| `polygon_id` | int | Unique crown identifier (join key) |
+| `split` | string | `train` / `val` / `test` |
+| `species_label` | string | Species name used as the classification label |
+| `gbif_accepted_scientific_name` | string | GBIF-accepted full scientific name |
+| `final_plant_name` | string | Field-verified plant name |
+| `canopyrs_object_id` | int | Original CanopyRS object ID |
+| `habit` | string | Growth form |
+| `area` | float | Crown polygon area in m² |
+| `closeup` | Image | 512×512 RGBA center-cropped/padded close-up photo |
+
+**Size:** 1,897 rows (train 1,336 · val 267 · test 294)
+
+---
+
+## Data Splits
+
+Splits are **stratified by species** using a 70 / 15 / 15 allocation. Species with ≤ 6 crowns use fixed small-sample allocations to ensure representation across splits where possible.
+
+| Split | Crowns | Species |
+|---|---|---|
+| train | 1,336 | 84 |
+| val | 267 | 65 |
+| test | 294 | 81 |
+| **Total** | **1,897** | **84** |
+
+---
+
+## Species Distribution (Top 10)
+
+| Species | Total crowns |
+|---|---|
+| *Anacardium excelsum* | 257 |
+| *Dipteryx oleifera* | 190 |
+| *Luehea seemannii* | 109 |
+| *Prioria copaifera* | 95 |
+| *Jacaranda copaia* | 90 |
+| *Hieronyma alchorneoides* | 83 |
+| *Virola surinamensis* | 63 |
+| *Hura crepitans* | 57 |
+| *Tachigali panamensis* | 45 |
+| *Quararibea stenophylla* | 44 |
+
+The dataset is **long-tailed**: 84 species total, many with < 10 crowns.
+
+---
+
+## Temporal Coverage
+
+16 monthly acquisition dates:
+
+```
+2024-06-11  2024-07-16  2024-08-13  2024-09-18
+2024-10-14  2024-11-12  2024-12-16  2025-01-24
+2025-02-17  2025-03-17  2025-04-14  2025-05-12
+2025-06-16  2025-07-15  2025-08-18  2025-09-15
+```
+
+Dates span the **dry season** (January–April) and **wet season** (May–December) of the Panamanian tropics, capturing phenological variation.
+
+---
+
+## Image Details
+
+### Crown-view tiles (`crownview`)
+- **Source**: RGB COG rasters acquired over BCI (~10 cm/px GSD)
+- **Processing**: Each labeled crown polygon is tilerized using [geodataset](https://github.com/canopyrs/geodataset). Pixels outside the crown polygon are **zeroed out** (alpha = 0 in RGBA). Images are center-cropped or zero-padded to 512 × 512.
+- **Format**: PNG-encoded RGBA, stored as HuggingFace `Image` feature
+
+### Close-up photos (`closeup`)
+- **Source**: Drone zoom photos collected via the CanopyRS platform (`zoom_url` field)
+- **Processing**: Downloaded from CanopyRS, center-cropped / zero-padded to 512 × 512 RGBA
+- **Format**: PNG-encoded RGBA, stored as HuggingFace `Image` feature
+- **Temporal note**: One close-up per crown (date-invariant) — join to `temporal` on `polygon_id`
+
+---
+
+## Usage
+
+### Load a single config
+
+```python
+from datasets import load_dataset
+
+# Multi-temporal crown views
+temporal = load_dataset("sulagnasaharasha/bci-temporal", "temporal")
+print(temporal["train"][0])
+# {'polygon_id': 12345, 'date': '20250915', 'species_label': 'Anacardium excelsum',
+#  'crownview': <PIL.Image ...>, ...}
+
+# Close-up photos
+closeup = load_dataset("sulagnasaharasha/bci-temporal", "closeup")
+print(closeup["train"][0])
+# {'polygon_id': 12345, 'species_label': 'Anacardium excelsum',
+#  'closeup': <PIL.Image ...>, ...}
+```
+
+### Join temporal + closeup for multi-modal training
+
+```python
+from datasets import load_dataset
+import pandas as pd
+
+temporal = load_dataset("sulagnasaharasha/bci-temporal", "temporal")
+closeup  = load_dataset("sulagnasaharasha/bci-temporal", "closeup")
+
+# Convert to pandas and join
+t = temporal["train"].to_pandas()
+c = closeup["train"].to_pandas()[["polygon_id", "closeup"]]
+paired = t.merge(c, on="polygon_id")
+# Each row now has both crownview (date-specific) and closeup (date-invariant)
+```
+
+### PyTorch Dataset example
+
+```python
+import torch
+from torch.utils.data import Dataset
+from datasets import load_dataset
+from torchvision import transforms
+
+class BCITemporalDataset(Dataset):
+    def __init__(self, split: str = "train", transform=None):
+        temporal = load_dataset("sulagnasaharasha/bci-temporal", "temporal", split=split)
+        closeup  = load_dataset("sulagnasaharasha/bci-temporal", "closeup",  split=split)
+
+        t_df = temporal.to_pandas()
+        c_df = closeup.to_pandas()[["polygon_id", "closeup"]]
+        self.df = t_df.merge(c_df, on="polygon_id").reset_index(drop=True)
+
+        self.species = sorted(self.df["species_label"].unique())
+        self.label_map = {s: i for i, s in enumerate(self.species)}
+        self.transform = transform or transforms.ToTensor()
+
+    def __len__(self) -> int:
+        return len(self.df)
+
+    def __getitem__(self, idx: int) -> dict:
+        row = self.df.iloc[idx]
+        crown   = self.transform(row["crownview"].convert("RGB"))   # [3, H, W]
+        closeup = self.transform(row["closeup"].convert("RGB"))     # [3, H, W]
+        label   = self.label_map[row["species_label"]]
+        return {"crownview": crown, "closeup": closeup,
+                "label": torch.tensor(label), "date": row["date"],
+                "polygon_id": row["polygon_id"]}
+```
+
+---
+
+## Source Data
+
+- **Site**: [Barro Colorado Island (BCI)](https://stri.si.edu/facility/barro-colorado-island), Smithsonian Tropical Research Institute, Republic of Panama
+- **Crown polygons**: Produced by [CanopyRS](https://canopyrs.org) using automated segmentation + expert annotation
+- **Aerial rasters**: Monthly RGB orthomosaics acquired over BCI (COG format), hosted by the CanopyRS platform
+- **Taxonomy**: Species names resolved against [GBIF Backbone Taxonomy](https://www.gbif.org/dataset/d7dddbf4-2cf0-4f39-9b2a-bb099caae36c) and [WCVP](https://wcvp.science.kew.org/)
+
+---
+
+## License
+
+[Creative Commons Attribution 4.0 International (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/)
+
+---
+
+## Citation
+
+If you use this dataset, please cite:
+
+```bibtex
+@dataset{saharasha2025bcitemporal,
+  author    = {Saharasha, Sulagna},
+  title     = {{BCI Temporal Crown Dataset}: Multi-temporal aerial crown tiles
+               paired with ground-level close-up photos for tropical tree
+               species recognition},
+  year      = {2025},
+  publisher = {HuggingFace},
+  url       = {https://huggingface.co/datasets/sulagnasaharasha/bci-temporal},
+  note      = {Barro Colorado Island, Panama. 84 species, 1897 crowns, 16 dates.}
+}
+```